How can I keep my animation in Orthographic when doing a final animation?
I've figured it out thanks to @Hendriks3D's question. 

My Original render settings are set above, but when opening a new window and loading my images, the camera render settings were moved back to 1920 x 1080 which changes the rendered images regardless of original render size. 

I just changed them to my 1080 x 1000 and Tadaa!!! it's all correctly shaped again. Thanks @Hendriks3D for pointing me in the right direction.